New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1973060 =	5 (0.350)	4 (0.280)	4/274	NT	44.4%	intergenic (‑606/‑174)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein
	?	CP009273	= 3577555	NA (NA)					intergenic (+15/‑1)	insB1/yrhA	IS1 transposase B/pseudogene, interrupted by IS1E

GCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCTTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGAT  >  CP009273/1972919‑1973166                                                                                                                                              |                                                                                                           gCAGTACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACGAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATCCGGAGAATCGGTGCACTAtt                                                                                                        >  2:208204/1‑146 (MQ=255) gCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCt                                                                                                    >  1:87930/1‑150 (MQ=255)   aaTACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTgg                                                                                                  >  1:253308‑M2/1‑148 (MQ=255)            tAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTggtgatg                                                                                             <  2:95448‑M2/146‑8 (MQ=255)                       agcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggcattattgctCGTTTTGCTTATAATTACATTTGAAATtata                                                                              >  1:261645‑M1/120‑150 (MQ=255)                           cAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAACGCGGAGAATCAGTACACTATTTTCGggtgatgctgccaacttactgattta                                                                          <  1:154581‑M2/150‑27 (MQ=255)                             gACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATg                                                                            <  2:132488/146‑1 (MQ=255)                                  cggctggtacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccCTATTTTCTTATAATTACATTTGAAATTATATGATCACCggg                                                                   >  1:256625‑M1/109‑150 (MQ=255)                                  cggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaccactatcaataagttggagtcattaccCTATTTTCTTATAATTACATTTGAAATTATATGATCAc                                                                       >  2:226114‑M1/109‑146 (MQ=255)                                         gacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccCTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGtgatt                                                            <  1:172668‑M1/49‑1 (MQ=255)                                            acaaACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCAACGGGGGtgattgat                                                         >  1:67505/1‑150 (MQ=255)                                                       aaaTACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATAGTGACGACTTGGTTAATGCGGAGAATCAGTACACTATTTTCTgcagctgctgccaacttatggctttagtgtatgattgtgtttttggggtg                                                  <  2:138779‑M2/146‑51 (MQ=255)                                                         aTACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCTTTAc                                            <  1:79034/150‑1 (MQ=255)                                                                                            gAAATGTTTTACATATATTAACCACTTGAATACGGAAAAGAATCAGTACACTATTTTCTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcacctgtccctcctg             <  2:50882‑M2/146‑88 (MQ=255)                                                                                                tGTTTTACATATATTAACCACTTGTTTAAGGCGGAGAATCAGTACACTATTTTCTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagcta     >  1:96888‑M2/1‑55 (MQ=255)                                                                                                   nttACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTCCATTTGAAATTATATGATCACCGGGAGTGATTGATTCCTCATCCATACTAATAACAAGACTAATATTTACGTGTTTGACCGAGTTGGGAt  >  1:165727/2‑150 (MQ=255)                                                                                                                                              |                                                                                                           GCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCTTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGAT  >  CP009273/1972919‑1973166

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.